Structure of PDB 6lss Chain a Binding Site BS01

Receptor Information

>6lss Chain a (length=148) Species: 9606 (Homo sapiens)

SMLRLQKRLASSVLRCGKKKVWLDPNETNEIANANSRQQIRKLIKDGLII
RKPVTVHSRARCRKNTLARRKGRHMGIGKRKGTANARMPEKVTWMRRMRI
LRRLLRRYRESKKIDRHMYHSLYLKVKGNVFKNKRILMEHIHKLKADK

Ligand information

>6lss Chain 2 (length=3474)

cgcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguc
agcggaggagaagaaacuaaccaggauucccucaguaacggcgagugaac
agggaagagcccagcgccgaauccccgccccgcggcggggcgcgggacau
guggcguacggaagacccgcuccccggcgccgcucguggggggcccaagu
ccuucugaucgaggcccagcccguggacggugugaggccgguagcggccc
ccggcgcgccgggcccgggucuucccggagucggguugcuugggaaugca
gcccaaagcgggugguaaacuccaucuaaggcuaaauaccggcacgagac
cgauagucaacaaguaccguaagggaaaguugaaaagaacuuugaagaga
gaguucaagagggcgugaaaccguuaagagguaaacgggugggguccgcg
caguccgcccggaggauucaacccggcggcggguccggccgugucggcgg
cccggcggaucuuucccgcgcgggggaccgucccccgaccggcgaccggc
cgccgccgggcgcauuuccaccgcggcggugcgccgcgaccggcuccggg
acggcugggaaggcccggcggggaagguggcucgggggcccccgaguguu
acagcccccccggcagcagcacucgccgaaucccggggccgagggagcga
gacccgucgccgcgcucuccccccucccggcgcgccggggggggccgggc
caccccucccacggcgcgaccgcucggggcggacuguccccagugcgccc
cgggcgggucgcgccgucgggcccgggggaggccacgcgcgcgucccccg
aagagggggacggcggagcgagcgcacggggucggcggcgacgucggcua
cccacccgacccgucuugaaacacggaccaaggagucuaacacgugcgcg
agucgggggcucgcacgaaagccgccguggcgcaaugaaggugaaggccg
gcgcgcucgccggccgaggugggaucccgaggccucuccaguccgccgag
ggcgcaccaccggcccgucucgcccgccgcgccggggagguggagcacga
gcgcacguguuaggacccgaaagauggugaacuaugccugggcagggcga
agccagaggaaacucugguggagguccguagcgguccugacgugcaaauc
ggucguccgaccuggguauaggggcgaaagacuaaucgaaccaucuagua
gcugguucccuccgaaguuucccucaggauagcuggcgcucucgcagacc
cgacgcccgccacgcaguuuuauccgguaaaacuuuaaauggguaagaag
cccggcucgcuggcguggagccgggcguggaaugcgagugccuagugggc
cacuuuugguaacagaacuggcgcugcgggaugaaccgaacgccggguua
aggcgcccgaugccgacgcucaucagaccccagaaaagguguugguugau
auagacagcaggacaccugccgaaucaacuagcccugaaaauggauggcg
cuggagcgucgggcccauacccggccgucgccggcagucgagaguggacg
ggagcggcggcccggagccccgcggacgcuacgccgcgacgaguaggagg
gccgcugcggugagccuugaagccuagggcgcgggcccggguggagccgc
cgcaggugcagaucuuggugguaguagcaaauauucaaacgagaacuuug
aaggccgaaguggagaaggguuccaugugaacagcaguugaacauggguc
agucgguccugagagaugggcgagcgccguuccgaagggacgggcgaugg
ccuccguugcccucggccgaucgaaagggagucggguucagauccccgaa
uccggaguggcggagaugggcgccgcgaggcguccagugcgguaacgcga
ccgaucccggagaagccggcgggagccccggggagaguucucuuuucuuu
gugaagggcagggcgcccuggaauggguucgccccgagagaggggcccgu
gccuuggaaagcgucgcgguuccggcggcguccggugagcucucgcuggc
ccuugaaaauccgggggagaggguguaaaucucgcgccgggccguaccca
uauccgcagcaggucuccaaggugaacagccucuggcauguuggaacaau
guagguaagggaagucggcaagccggauccguaacuucgggauaaggauu
ggcucuaagggcugggucggucgcggccggcgccuagcagccgacuuaga
acuggugcggaccaggggaauccgacuguuuaauuaaaacaaagcaucgc
gaaggcccgcggcggguguugacgcgaugugauuucugcccagugcucug
aaugucaaagugaagaaauucaaugaagcgcggguaaacggcaagaugaa
cgagauucccacugucccuaccuacuauccagcgaaaccacagccaaggg
aacgggcuuggcggaaucagcggggaaagaagacccuguugagcuugacu
cuagucuggcacggugaaguuuuuucacugacccggugaggcgggggggc
gagccccgaggggcucucgcuucuggcgccaagcgcccggccgcgcgccg
gccgggcgcgacccgcuccggggacagugccagguggggaguuugacugg
ggcgguacaccugucaaacgguaacgcagguguccuaaggcgagcucagg
gaggacagaaaccucccguggagcagaagggcaaaagcucgcuugaucuu
gauuuucaguacgaauacagaccgugaaagcggggccucacgauccuucu
gaccuuuuggguuuuaagcaggaggugucagaaaaguuaccacagggaua
uuguggcggccaagcguucauagcgacgucgcugaugucggcucuuccua
ucauugugaagcagaauucaccaagcguuggauuguucacccacuaauag
ggaacgugagcuggguuuagaccgucgugagacagguuaguuuuacccua
cugaugauguguuguugccaugguaauccugcucaguacgagaggaaccg
cagguucagacauuugguguaugugcuuggcugaggagccaauggggcga
agcuaccaucugugggauuaugacugaacgccucuaagucagaaucccgc
ccaggcggaacgauacggcagcgccgcggagccucgguuggccucggaua
gccggucccccgccgggguccggugcggagugcccuucguccugggaaac
ggggcgcggccggagaggcggccgcccccucgcccgucacgcaccgcacg
uucguggggaaccuggcgcuaaaccauucguagacgaccugcuucugggu
cgggguuucguacguagcagagcagcucccucgcugcgaucuauugaaag
ucagcccucgacacaaggguuugu

.........................<<<<<<.....<<....>>......
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>>>>>>..<<<..<<<<<...<<<<<<<<<<.....>>>>>>.>>>>...
..>>>>>..<<<<<<<<<<...<<..<<<<........<<<<<<<<....
<<<<......>>>>.....((......<<<.....))>>>...>.>>>>>
>>...>>>>..>>..>>>>>>>>>>.......<<<<<<<........>>>
>>>>.....<<<<<..((((((>>>>>..>>>..................
................<<....>>...............<<<......>>
>..................................<<<<<<<<..<<<.<
<...<<<<<<<<.<<<.....<<<<<<<<<<<..<<<<<<<.......<<
....<<<<.<<<..<........>>>>>>>>>>......>>>>...>>>>
>>>>>>>>>>......>>>.>>>.>>>>>...<<<<<<<.<<<<<<<<<<
<<<<<...<<..<<<.<<.<<<<......<<<<<<<<..>>>>>>>>...
....>>>>.>>>>>........>>>>>>..>>>>>>>>>>>.........
...........<<<<<<.<<<<<<<............>>>>>>>.<<<<<
<.<<<<.<<<<<<<<<<..<<<<<.<<<<<.<.<........>>..>>>>
>.>>>>>...>>>>>>>.>>>...>>>>..>>>>.>>..<<<<<<<<<..
.....>>>>>>>.>>....>>>>>>......>>.>>>>>...>>>>>...
>>>>>>>>..<<<<........>>>><<<<<<....<<<<<<<<<<<<<.
.<<<...<<<<........>>>>.....>>>...<<....>>...<<<<<
<<......>>>>>>>..<<<<<...<<<..<<<..[.....(((>>>..>
>>....>>>>>.<<<<<<<<<.<<<<......>>>>>>>>>>>.>>....
>>>>>>>>>>>>>..<<.<..<<<<<<<.....<<<<<<<<<..<<<...
.<<<<<<<....>>>>>>>.....>>>...<<<..<<.<<........>>
>>.>>>....>>>>>>>>>...<<.......>>......>>>>>>...>.
.>.>>..<<<<<<....<.<<<....>>>.><<.<<<<<<<.........
.............<<<.<<<<<<<<<...<<...>>...>>>>>>>...<
<<<<<<<<.........>>>>>>>>>....>>>>>>>>>>>>..>>..<<
<<.<<<<<....>>>>>.>>>>....<<<......>>>...<<<<<<<..
.<<<(((.......<<<<<.....<<..........<<<.<<<<<<<<<<
.......<<<<.....>>>>...>>>>>>>>>>>>>..{.......))).
>>...>>>>>..>>>...>>>>>>><<<<<<.<<<..........)))..
...]............................>>>>>>>>>....>>>>>
>.<.<<<<<<<<.<<......<<<<.<<<<....>>>>>>>>...>>>>>
>>>>>..>.....>>>>>><<.....<<.....<<<<<<.......>>>>
>>.<<<.....<<<<<.<<...<<<<<....<<.....>>..>>>>>...
.((<<<<<<...<<....<<<....>>>..........<<.<<<<<..<<
...>>..>>>>>>>......>>....>>>..<<<<<........>>>>>)
)<<<<....<<<<<..<<<<<.<<....>>.>>>>>..<<<....>>>..
.<..<<<<<<<...<<<<<<<<<<<<<<<<<<<<<<<..[[[..>>>>>>
....<<<<<.<<<<.<<<<.....<<<.....>>>.....>>>>>>>>..
>>>>>.....<<<<<<<.......>>>>>>>>>>>.>.>>>>>>>>>>>>
.........>>>>>>>..>..........>>.>>>.>>>>.>>>..>>..
...<<......>>>>>>>.<<<<.....>>>>..>>>....<<<<.....
<<<<<<<.<<...............<<<<<....<....>.....>>>>>
<<.<<<<<<<<<<<..<............>.......>>>>>..>>>>>>
.>>............<<<<<<<<<..<<<.........>>>..<<<<<<<
....<<<<.....>>>>......>>>>>>>.......<<<..<<<<<<..
..<<<.....<<<<....>>>>.....>>>.>>>>..>>>>>........
>>.>>>>>>>.....>>.>>>>>>>..>>>>>>....>>....<<<<<..
......>>>>>....<<<<<..<<<........<<<<<.<<<<<<..<<<
<<.<<<<<<<<<.<<<<<.....>>>>>...<<<<<.....<<<<.....
....<....>......................<<<<<<<<<<.......>
>>>>>>>>>..>>>>..>>>>>....>>>>>>>>>..>>>>>...<<<..
...>>>..<<<<<<...........>>>>>>..<<...<<<<<<<...<<
<<<<.......>>>>>>.....<<.[.(((>>....>>>>>>>...<<<.
<<<<<.......>>>>.>>>>.<<<....>>>.>>)))].....<<<<<<
<..<<<..)))))).>>>>>>>>>>.........>>>>..>>>>>>>...
.}..<<<<<<...<<.......>>...>>>>>>((...<<<<.<<<<<<.
.<.<.<<<<<......>>>>>...>.>.<<<.....))..>>>.....>>
>>>..>...>>>>......<<<<<<<....>>>.>>>>........>>>.
>>>>>.....<<<<<<.<..<<<..<.<<<<<.................>
>>>>.><<<<....<<<<....<<.<<<<<<.]]]..>>>>..>>.>>..
.>>>>...>>>><<<<<...<<<<<...........>>>>>...>>>>>.
>>>...>.>>>>>>.....<<<<<<<.<<..<<<<....<<<........
<<<<<.<<<<....>>>>.>>>>>.......>>>...<<<..<<<<....
<<<<.<<<<<<<......>>>>>>>>>>>...>>>>..>>>.........
.....>>>>..>>>>>>>>><<<<<.<.............>....<<.<<
<<<<<.<<.....<<<<....<<<<<......>>>>>...>>>>....>>
....>>>>.>>>.>>..>>>>>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6lss Structural snapshots of human pre-60S ribosomal particles before and after nuclear export.
• Resolution: 3.23 Å
• Binding residue (original residue number in PDB): R5 L6 K8 R9 G18 K19 K20 K21 W23 L24 P26 S37 R38 Q39 R42 K43 K46 V55 T56 H58 S59 R60 A61 R62 R64 R70 R74 H75 I78 G79 R81 K82 G83 T84 N86 A87 R88 P90 K92 W95 M96 R97 R100 R103 R108 R110 K114 R117 H118 Y120 H121 Y124 L125 K128 G129 N130 N134 K135 R136 H143
• Binding residue (residue number reindexed from 1): R4 L5 K7 R8 G17 K18 K19 K20 W22 L23 P25 S36 R37 Q38 R41 K42 K45 V54 T55 H57 S58 R59 A60 R61 R63 R69 R73 H74 I77 G78 R80 K81 G82 T83 N85 A86 R87 P89 K91 W94 M95 R96 R99 R102 R107 R109 K113 R116 H117 Y119 H120 Y123 L124 K127 G128 N129 N133 K134 R135 H142

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0005925 focal adhesion
• GO:0016020 membrane
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:0045202 synapse
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6lss, PDBe:6lss, PDBj:6lss
• PDBsum: 6lss
• PubMed: 32669547
• UniProt: P84098|RL19_HUMAN Large ribosomal subunit protein eL19 (Gene Name=RPL19)